Locus 8226

Sequence ID	3R_DroMel_CAF1
Location	22,061,267 – 22,061,376
Length	109
Max. P	0.914109

overview

Window 5

Location	22,061,267 – 22,061,376
Length	109
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	89.97
Mean single sequence MFE	-26.96
Consensus MFE	-21.42
Energy contribution	-20.94
Covariance contribution	-0.48
Combinations/Pair	1.11
Mean z-score	-1.46
Structure conservation index	0.79
SVM decision value	0.12
SVM RNA-class probability	0.594990
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22061267 109 + 27905053
ACGGGCAAAAUAUCA-AAGAG----------CCAUGGCUUGCCUCAACAACUGACUCACCCCACUGGUCGGGGUAAGUCCAAGUCAAGAAAUGUGAUAAGUACGACUGAUAUUCCAUAUA
...((...(((((((-..(((----------(....)))).........(((((((.(((((.......))))).))))...(((((....).)))).))).....)))))))))..... ( -25.80)
>DroSec_CAF1 53305 110 + 1
ACGGGCAAAAUAUCAAAAGAG----------ACAUGGCUUGCCUCAACAACUGACUCACCCCACUGGCCGGGGUAAGUCCAAGUCAAGAAAUUUGAUAAGUACGACUGAUAUUCCAUAUA
...((...(((((((...(((----------.((.....)).)))....(((((((.(((((.......))))).))))...((((((...)))))).))).....)))))))))..... ( -25.50)
>DroSim_CAF1 45982 110 + 1
ACGGACAAAAUAUUAAAAGAG----------ACAUGGCUUACCUCAACAACUGACUCACCCCACUGGCCGGGGUAAGUCCAAGUCAAGAAAUGUGAUAAGUGCGACUGAUAUUCCAUAUA
..(((....((((((.....(----------((.(((((((((((..((..((........)).))...)))))))).))).)))......(((.......)))..)))))))))..... ( -23.00)
>DroEre_CAF1 47804 109 + 1
ACGGGCAAAAUAUCA-GAGAG----------CCAUGGCUUACCUCAGCAACUGACUCACCCCACCGAUCGGGGUAGGUCCAAGUCAAGAAAUGUGAUAAGUACCACUGAUAUUCCAUAUA
...((...(((((((-(.(((----------(....)))).........((((((..(((((.......)))))..)))...(((((....).)))).)))....))))))))))..... ( -29.40)
>DroYak_CAF1 55568 119 + 1
ACGGGCAAAAUAUCA-AAGAGCCAGCCCCAGCCAUGGCUUACCUUAACAACUGACUCACCCCACCGACCGGGGUAAGUCCAAGUCAAGAAAUGUGAUAAGUGCGACUGAUAUUCCAUAUA
.((((((...(((((-..((((((((....))..))))))..(((.((....((((.(((((.......))))).))))...)).))).....)))))..)))..)))............ ( -31.10)
>consensus
ACGGGCAAAAUAUCA_AAGAG__________CCAUGGCUUACCUCAACAACUGACUCACCCCACUGGCCGGGGUAAGUCCAAGUCAAGAAAUGUGAUAAGUACGACUGAUAUUCCAUAUA
..(((....((((((...(................((....))......(((((((.(((((.......))))).))))...((((.......)))).))).)...)))))))))..... (-21.42 = -20.94 +  -0.48)

alignment

secondary structure

dotplot

Window 6

Location	22,061,267 – 22,061,376
Length	109
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	89.97
Mean single sequence MFE	-34.70
Consensus MFE	-27.42
Energy contribution	-27.86
Covariance contribution	0.44
Combinations/Pair	1.04
Mean z-score	-1.99
Structure conservation index	0.79
SVM decision value	1.09
SVM RNA-class probability	0.914109
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22061267 109 - 27905053
UAUAUGGAAUAUCAGUCGUACUUAUCACAUUUCUUGACUUGGACUUACCCCGACCAGUGGGGUGAGUCAGUUGUUGAGGCAAGCCAUGG----------CUCUU-UGAUAUUUUGCCCGU
.....((((((((((................(((..((...(((((((((((.....)))))))))))....))..)))..(((....)----------))..)-)))))))))...... ( -35.30)
>DroSec_CAF1 53305 110 - 1
UAUAUGGAAUAUCAGUCGUACUUAUCAAAUUUCUUGACUUGGACUUACCCCGGCCAGUGGGGUGAGUCAGUUGUUGAGGCAAGCCAUGU----------CUCUUUUGAUAUUUUGCCCGU
.....((((((((((....................(((...(((((((((((.....)))))))))))....)))((((((.....)))----------)))..))))))))))...... ( -34.10)
>DroSim_CAF1 45982 110 - 1
UAUAUGGAAUAUCAGUCGCACUUAUCACAUUUCUUGACUUGGACUUACCCCGGCCAGUGGGGUGAGUCAGUUGUUGAGGUAAGCCAUGU----------CUCUUUUAAUAUUUUGUCCGU
.((((((..((((((.....))...........(..((...(((((((((((.....)))))))))))....))..)))))..))))))----------..................... ( -29.60)
>DroEre_CAF1 47804 109 - 1
UAUAUGGAAUAUCAGUGGUACUUAUCACAUUUCUUGACUUGGACCUACCCCGAUCGGUGGGGUGAGUCAGUUGCUGAGGUAAGCCAUGG----------CUCUC-UGAUAUUUUGCCCGU
.....((((((((((.(((.((((((.((.(..((((((((..((((((......)))))).))))))))..).)).)))))).....)----------))..)-)))))))))...... ( -33.90)
>DroYak_CAF1 55568 119 - 1
UAUAUGGAAUAUCAGUCGCACUUAUCACAUUUCUUGACUUGGACUUACCCCGGUCGGUGGGGUGAGUCAGUUGUUAAGGUAAGCCAUGGCUGGGGCUGGCUCUU-UGAUAUUUUGCCCGU
.....((((((((((..((............(((((((...(((((((((((.....)))))))))))....)))))))..((((........)))).))...)-)))))))))...... ( -40.60)
>consensus
UAUAUGGAAUAUCAGUCGUACUUAUCACAUUUCUUGACUUGGACUUACCCCGGCCAGUGGGGUGAGUCAGUUGUUGAGGUAAGCCAUGG__________CUCUU_UGAUAUUUUGCCCGU
.....(((((((((...................(((((...(((((((((((.....)))))))))))....)))))((....))....................)))))))))...... (-27.42 = -27.86 +   0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:06:03 2006